Origin IGS: tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctcttttttatatattttattaattaaaatatataaaacaaatattttacatatatacttttttaaagtagtatggtaacaatattataattaagggagggatagaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttctatccctcccttaattataatattgttaccatactactttaaaaaagtatatatgtaaaatatttgttttatatattttaattaataaaatatataaaaaagagaatcttttcaagattttattctcaaaaaaattctctaaatttcattttataaa Mask Tandem Repeat Region ================================================ tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctcttttttatatattttattaattaaaatatataaaacaaatattttacatatatacttttttaaagtagtatggtaacaatattataattaagggagggatagaa Find is-nt database================================================ Query_seq: FN0656:FN0657|FN0656:FN0657:hypothetical protein:Acetyltransferase:->->:1314246..1314405 160 tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctcttttttatatattttattaattaaaatatataaaacaaatattttacatatatacttttttaaagtagtatggtaacaatattataattaagggagggatagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0656:FN0657|FN0656:FN0657:hypothetical protein:Acetyltransferase:->->:1314246..1314405 160 tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctcttttttatatattttattaattaaaatatataaaacaaatattttacatatatacttttttaaagtagtatggtaacaatattataattaagggagggatagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0656:FN0657|FN0656:FN0657:hypothetical protein:Acetyltransferase:->->:1314246..1314405 160 tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctcttttttatatattttattaattaaaatatataaaacaaatattttacatatatacttttttaaagtagtatggtaacaatattataattaagggagggatagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctcttttttatatattttattaattaaaatatataaaacaaatattttacatatatacttttttaaagtagtatggtaacaatattataattaagggagggatagaa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 40 End: 129 ....................................... M L K R F S F L Y I L L I K I Y K T N I L H I Y F F K V V W ............................... Protein_Len: 35 Strand: - Start: 3 End: 107 .. I F H F K S F K K S F L I K F L N E K K Y I K N I L I Y L V F I K C M ..................................................... tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctcttttttatatattttattaattaaaatatataaaacaaatattttacatatatacttttttaaagtagtatggtaacaatattataattaagggagggatagaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 83 Start: 98 End: 127 .................................................................................................TTTTACATATATACTTTTTTAAAGTAGTAT................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctcttttttatatattttattaattaaaatatataaaacaaatattttacatatatacttttttaaagtagtatggtaacaatattataattaagggagggatagaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 42 HP_score: -4.0 Tail_Score: -2.8012 Start: 53 End: 97 Full_Region: agtatatatgtaaaa tatttgttttatatatttta attaa taaaatatataaaaaagaga atcttttcaagattt ....................................................tatttgttttatatattttaattaataaaatatataaaaaagaga............................................................... TransTerm Strand: + Conf: 52 HP_score: -4.4 Tail_Score: -3.72985 Start: 55 End: 95 Full_Region: ATCTTGAAAAGATTC TCTTTTTTATATATTTTA TTAAT TAAAATATATAAAACAAA TATTTTACATATATA ......................................................TCTTTTTTATATATTTTATTAATTAAAATATATAAAACAAA................................................................. TransTerm Strand: + Conf: 52 HP_score: -5.4 Tail_Score: -2.83068 Start: 57 End: 94 Full_Region: CTTGAAAAGATTCTC TTTTTTATATATTTTA TTAAT TAAAATATATAAAACAA ATATTTTACATATAT ........................................................TTTTTTATATATTTTATTAATTAAAATATATAAAACAA.................................................................. Find igs database================================================ Query_seq: FN0656:FN0657|FN0656:FN0657:hypothetical protein:Acetyltransferase:->->:1314246..1314405 160 tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctcttttttatatattttattaattaaaatatataaaacaaatattttacatatatacttttttaaagtagtatggtaacaatattataattaagggagggatagaa Intra-Species Hit: Count: 1 Min: 1 Max: 160 Len: 160 Subject: NC_003454_FN0656_FN0657|hypothetical protein:Acetyltransferase|POSITIVE:POSITIVE|[1314246, 1314405]|160 HSP 1 e-value: 2.0E-14 bit: 79.8 Len: 40 Query Start:121 Query End:160 Subject Strand: POSITIVE Subject Start: 121 Subject End: 160 ........................................................................................................................gtagtatggtaacaatattataattaagggagggatagaa ........................................................................................................................gtagtatggtaacaatattataattaagggagggatagaa HSP 2 e-value: 2.0E-11 bit: 69.9 Len: 56 Query Start:1 Query End:56 Subject Strand: POSITIVE Subject Start: 1 Subject End: 56 tttataaaatgaaatttagagaannnnnnngagaataaaatcttgaaaagattctc........................................................................................................ tttataaaatgaaatttagagaatttttttgagaataaaatcttgaaaagattctc........................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUAAAAUGAAAUUUAGAGAAUUUUUUUGAGAAUAAAAUCUUGAAAAGAUUCUCUUUUUUAUAUAUUUUAUUAAUUAAAAUAUAUAAAACAAAUAUUUUACAUAUAUACUUUUUUAAAGUAGUAUGGUAACAAUAUUAUAAUUAAGGGAGGGAUAGAA ....(((((((......((((((((((((..(((......)))..)))))))))))).((((((((((((((.....))))))))))))))....)))))))..(((...(((((((((.(((((((.......)))))))..)))))))))..)))... (-38.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUAUCCCUCCCUUAAUUAUAAUAUUGUUACCAUACUACUUUAAAAAAGUAUAUAUGUAAAAUAUUUGUUUUAUAUAUUUUAAUUAAUAAAAUAUAUAAAAAAGAGAAUCUUUUCAAGAUUUUAUUCUCAAAAAAAUUCUCUAAAUUUCAUUUUAUAAA .....................................(((((.....)))))....((((((((.....((((((((((((((.....)))))))))))))).(((((((.((((..(((......)))..)))).))))))).......)))))))).. (-25.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 279 60 13 72 28 NC_003454:FN1678|5end_hypothetical_protein_174287..174517_POSITIVE 204 157 122 41 1 NC_003454:FN1810|5end_Manganese_transport_system_membrane_protein_mntB_291953..292183_NEGATIVE 181 70 24 156 97 NC_003454:FN1132|5end_Nicotinamide-nucleotide_adenylyltransferase_1779593..1779823_POSITIVE 181 76 32 220 180 NC_003454:FN1039|5end_Branched-chain_amino_acid_transport_protein_azlC_1690997..1691227_POSITIVE 180 146 104 220 177 NC_003454:FN0401|5end_hypothetical_protein_1040150..1040380_NEGATIVE 179 55 11 195 157 NC_003454:FN1075|5end_hypothetical_protein_1722042..1722272_POSITIVE 177 89 41 211 167 NC_003454:FN0113|5end_Heat-inducible_transcription_repressor_hrcA_746557..746787_POSITIVE 175 134 93 58 9 NC_003454:FN1368|5end_COMF_operon_protein_3_2018771..2019001_NEGATIVE 174 139 121 223 205 NC_003454:FN0205|5end_Sodium/glutamate_symport_carrier_protein_831469..831699_POSITIVE 174 74 31 150 102 NC_003454:FN2063|5end_hypothetical_protein_575019..575249_NEGATIVE 172 160 118 60 16 NC_003454:FN0112|5end_hypothetical_protein_746353..746583_POSITIVE 170 87 52 125 93 NC_003454:FN1226|5end_uracil-DNA_glycosylase_1885503..1885733_NEGATIVE 166 141 102 130 88 NC_003454:FN2107|5end_galactokinase_618150..618380_POSITIVE 163 138 91 176 128 NC_003454:FN0649|5end_Exoenzyme_regulatory_protein_aepA_precursor_1307717..1307947_NEGATIVE 163 106 66 209 160 NC_003454:FN0262|5end_Formate_acetyltransferase_889807..890037_NEGATIVE 162 89 44 93 46 NC_003454:FN0735|5end_Cell_surface_protein_1392666..1392896_POSITIVE 162 130 82 58 5 NC_003454:FN0618|5end_Spermidine/putrescine-binding_protein_1278739..1278969_NEGATIVE 161 94 52 141 101 NC_003454:FN1416|5end_AMINOTRANSFERASE_CLASS-I_2076893..2077123_POSITIVE 161 70 23 95 45 NC_003454:FN1393|5end_Signal_recognition_particle,_subunit_FFH/SRP54_2050844..2051074_NEGATIVE 158 44 7 81 41 NC_003454:FN1004|5end_Transcriptional_regulator,_TetR_family_1659662..1659892_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 411 60 13 90 45 NC_003454:FN0812|3end_Hypothetical_cytosolic_protein_1471397..1471547_POSITIVE 302 69 21 63 19 NC_003454:FN0599|3end_Transposase_1255199..1255349_POSITIVE 294 57 18 59 19 NC_003454:FN1161|3end_Glutamate_racemase_1820053..1820203_POSITIVE 287 57 18 63 24 NC_003454:FN0470|3end_Putative_efflux_pump_component_MtrF_1116359..1116509_POSITIVE 266 60 18 55 17 NC_003454:FN0274|3end_Transposase_900285..900435_NEGATIVE 265 57 18 75 35 NC_003454:FN0792|3end_urocanate_hydratase_1450364..1450514_POSITIVE 258 57 18 73 34 NC_003454:FN0656|3end_hypothetical_protein_1314185..1314335_POSITIVE 186 57 18 79 42 NC_003454:FN1951|3end_ATPase_associated_with_chromosome_architecture/replication_458400..458550_NEGATIVE 180 141 107 122 92 NC_003454:FN1941|3end_ClpB_protein_443953..444103_POSITIVE 179 55 11 81 43 NC_003454:FN1074|3end_Signal_recognition_particle_receptor_FtsY_1722008..1722158_POSITIVE 178 40 1 46 4 NC_003454:FN0514|3end_hypothetical_protein_1163912..1164062_POSITIVE 177 59 18 85 42 NC_003454:FN0167|3end_hypothetical_protein_794416..794566_POSITIVE 175 134 93 50 1 NC_003454:FN1369|3end_Zinc_finger_protein_2018779..2018929_NEGATIVE 174 139 121 80 62 NC_003454:FN0204|3end_Glutaconyl-CoA_decarboxylase_A_subunit_831406..831556_POSITIVE 170 87 52 112 80 NC_003454:FN1227|3end_hypothetical_protein_1885516..1885666_NEGATIVE 169 40 3 48 9 NC_003454:FN0859|3end_hypothetical_protein_1520720..1520870_NEGATIVE 167 78 42 99 68 NC_003454:FN0996|3end_Hypothetical_membrane-spanning_protein_1650673..1650823_NEGATIVE 167 160 126 72 33 NC_003454:FN1516|3end_hypothetical_protein_20664..20814_NEGATIVE 165 63 24 151 100 NC_003454:FN1131|3end_hypothetical_protein_1779676..1779826_POSITIVE 161 70 23 84 34 NC_003454:FN1394|3end_Signal_recognition_particle_associated_protein_2050855..2051005_NEGATIVE